Three accessions of sesame were de novo sequenced and assembled. One accession named ‘Zhongzhi13’ was a widely grown variety in China. And the other two accessions, ‘Mishuozhima’ and ‘Baizhima’, were representative landraces from Eastern and Southern China respectively. The genome of ‘Zhongzhi13’ was reference genome for sesame functional genome research. The genomes of ‘Mishuozhima’ and ‘Baizhima’ had been aligned with ‘Zhongzhi13’ genome and homologous regions had been identified.
Detailed information about the alignment are provided and all you need input is the coordinate . For example, LG1,1,10000.
| Search the colinear region(smaller than 1Mb) between the Mishuozhima and the reference genome using reference cordinate |
1000000)
{
continue;
}
$query=mysql_query("select * from mishuozhima_colinear_map where Ref_chro = '$chromo' and Ref_start >= '$start' and Ref_end <= '$end'");
if($query)
{
?>
| Contig_name |
Contig_start |
Contig_end |
Ref_chromosome |
Ref_start |
Ref_end |
Contig_match_len |
Ref_match_len |
Identity |
Contig_length |
Ref_chro_length |
Contig_coverage |
Ref_cho_coverage |
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| Search the colinear region (smaller than 1Mb)between the Mishuozhima and the reference genome using Mishuozhima contig cordinate |
1000000)
{
continue;
}
$query=mysql_query("select * from mishuozhima_colinear_map where coting_name = '$chromo' and contig_start >= '$start' and contig_end <= '$end'");
if($query)
{
?>
| Contig_name |
Contig_start |
Contig_end |
Ref_chromosome |
Ref_start |
Ref_end |
Contig_match_len |
Ref_match_len |
Identity |
Contig_length |
Ref_chro_length |
Contig_coverage |
Ref_cho_coverage |
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| Search the colinear region (smaller than 1Mb)between the Baizhima and the reference genome using reference cordinate |
1000000)
{
continue;
}
$query=mysql_query("select * from xiaolizhima_colinear_map where ref_chro = '$chromo' and ref_start >= '$start' and ref_end <= '$end'");
if($query)
{
?>
| Contig_name |
Contig_start |
Contig_end |
Ref_chromosome |
Ref_start |
Ref_end |
Contig_match_len |
Ref_match_len |
Identity |
Contig_length |
Ref_chro_length |
Contig_coverage |
Ref_cho_coverage |
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| Search the colinear region (smaller than 1Mb) between the Baizhima and the reference genome using Baizhima coordinate |
1000000)
{
continue;
}
$query=mysql_query("select * from xiaolizhima_colinear_map where contig_name = '$chromo' and contig_start >= '$start' and contig_end <= '$end'");
if($query)
{
?>
| Contig_name |
Contig_start |
Contig_end |
Ref_chromosome |
Ref_start |
Ref_end |
Contig_match_len |
Ref_match_len |
Identity |
Contig_length |
Ref_chro_length |
Contig_coverage |
Ref_cho_coverage |
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